anom_utils.py

import numpy as np
import sklearn.metrics as sk

recall_level_default = 0.95


def stable_cumsum(arr, rtol=1e-05, atol=1e-08):
    """Use high precision for cumsum and check that final value matches sum
    Parameters
    ----------
    arr : array-like
        To be cumulatively summed as flat
    rtol : float
        Relative tolerance, see ``np.allclose``
    atol : float
        Absolute tolerance, see ``np.allclose``
    """
    out = np.cumsum(arr, dtype=np.float64)
    expected = np.sum(arr, dtype=np.float64)
    if not np.allclose(out[-1], expected, rtol=rtol, atol=atol):
        raise RuntimeError('cumsum was found to be unstable: '
                           'its last element does not correspond to sum')
    return out

def fpr_and_fdr_at_recall(y_true, y_score, recall_level=recall_level_default, pos_label=None):
    classes = np.unique(y_true)
    if (pos_label is None and
            not (np.array_equal(classes, [0, 1]) or
                     np.array_equal(classes, [-1, 1]) or
                     np.array_equal(classes, [0]) or
                     np.array_equal(classes, [-1]) or
                     np.array_equal(classes, [1]))):
        raise ValueError("Data is not binary and pos_label is not specified")
    elif pos_label is None:
        pos_label = 1.

    # make y_true a boolean vector
    y_true = (y_true == pos_label)

    # sort scores and corresponding truth values
    desc_score_indices = np.argsort(y_score, kind="mergesort")[::-1]
    y_score = y_score[desc_score_indices]
    y_true = y_true[desc_score_indices]

    # y_score typically has many tied values. Here we extract
    # the indices associated with the distinct values. We also
    # concatenate a value for the end of the curve.
    distinct_value_indices = np.where(np.diff(y_score))[0]
    threshold_idxs = np.r_[distinct_value_indices, y_true.size - 1]

    # accumulate the true positives with decreasing threshold
    tps = stable_cumsum(y_true)[threshold_idxs]
    fps = 1 + threshold_idxs - tps      # add one because of zero-based indexing

    thresholds = y_score[threshold_idxs]

    recall = tps / tps[-1]

    last_ind = tps.searchsorted(tps[-1])
    sl = slice(last_ind, None, -1)      # [last_ind::-1]
    recall, fps, tps, thresholds = np.r_[recall[sl], 1], np.r_[fps[sl], 0], np.r_[tps[sl], 0], thresholds[sl]

    cutoff = np.argmin(np.abs(recall - recall_level))

    return fps[cutoff] / (np.sum(np.logical_not(y_true)))   # , fps[cutoff]/(fps[cutoff] + tps[cutoff])

def get_measures(_pos, _neg, recall_level=recall_level_default):
    pos = np.array(_pos[:]).reshape((-1, 1))
    neg = np.array(_neg[:]).reshape((-1, 1))
    examples = np.squeeze(np.vstack((pos, neg)))
    labels = np.zeros(len(examples), dtype=np.int32)
    labels[:len(pos)] += 1

    auroc = sk.roc_auc_score(labels, examples)
    aupr = sk.average_precision_score(labels, examples)
    fpr = fpr_and_fdr_at_recall(labels, examples, recall_level)

    return auroc, aupr, fpr


def print_measures(auroc, aupr, fpr, method_name='Ours', recall_level=recall_level_default):
    print('\t\t\t\t' + method_name)
    print('FPR{:d}:\t\t\t{:.2f}'.format(int(100 * recall_level), 100 * fpr))
    print('AUROC: \t\t\t{:.2f}'.format(100 * auroc))
    print('AUPR:  \t\t\t{:.2f}'.format(100 * aupr))


def print_measures_with_std(aurocs, auprs, fprs, method_name='Ours', recall_level=recall_level_default):
    print('\t\t\t\t' + method_name)
    print('FPR{:d}:\t\t\t{:.2f}\t+/- {:.2f}'.format(int(100 * recall_level), 100 * np.mean(fprs), 100 * np.std(fprs)))
    print('AUROC: \t\t\t{:.2f}\t+/- {:.2f}'.format(100 * np.mean(aurocs), 100 * np.std(aurocs)))
    print('AUPR:  \t\t\t{:.2f}\t+/- {:.2f}'.format(100 * np.mean(auprs), 100 * np.std(auprs)))


def get_and_print_results(out_score, in_score, num_to_avg=1):

    aurocs, auprs, fprs = [], [], []

    measures = get_measures(out_score, in_score)
    aurocs.append(measures[0]); auprs.append(measures[1]); fprs.append(measures[2])

    auroc = np.mean(aurocs); aupr = np.mean(auprs); fpr = np.mean(fprs)

    return auroc, aupr, fpr

def eval_ood_measure(conf, seg_label, out_label=13):
    # this code subtracts one
    out_label = out_label
    in_scores = - conf[np.where(seg_label == out_label)]
    out_scores  = - conf[np.where(seg_label != out_label)]

    if (len(out_scores) != 0) and (len(in_scores) != 0):
        auroc, aupr, fpr = get_and_print_results(in_scores, out_scores)
        return auroc, aupr, fpr
    else:
        return None